BLASTN 2.2.26+
Reference:
Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000),
"A greedy algorithm for aligning DNA sequences", J Comput Biol 2000;
7(1-2):203-14.
Database: TAIR10_cdna_20110103_representative_gene_model_updated
33,602 sequences; 51,074,197 total letters
Query= Ahg482998
Length=1789
Score E
Sequences producing significant alignments: (Bits) Value
AT2G39730.1 | Symbols: RCA | rubisco activase | chr2:16570746-1... 2852 0.0
> AT2G39730.1 | Symbols: RCA | rubisco activase | chr2:16570746-16573548
REVERSE LENGTH=1833
Length=1833
Score = 2852 bits (1544), Expect = 0.0
Identities = 1724/1808 (95%), Gaps = 24/1808 (1%)
Strand=Plus/Plus
Query 1 AACTTGGCCAATCCGTATCGTGTGGCGATCAGAGAGTTAAGCCTTGAGGACGAAGAGATA 60
||||||||||||||| ||||||||||||||||||||||||||||||| ||||||||||||
Sbjct 1 AACTTGGCCAATCCGCATCGTGTGGCGATCAGAGAGTTAAGCCTTGAAGACGAAGAGATA 60
Query 61 ACGAATT-GTTGTTGATCACTCGCTTTATAAAtctcttaatttcttgctcacaccaacat 119
||||||| ||||||||||||||||||||||||||||| | ||||||||||||||||||||
Sbjct 61 ACGAATTGGTTGTTGATCACTCGCTTTATAAATCTCTCAGTTTCTTGCTCACACCAACAT 120
Query 120 ctctcaaag---cttcttct-----tc----t-ctctcttcagcttcttGTGTCGTGACG 166
||||| ||| |||||||| || | |||||||||||||||||||| ||||||
Sbjct 121 CTCTCTAAGCTTCTTCTTCTACCAATCTAATTCCTCTCTTCAGCTTCTTGTGTTGTGACG 180
Query 167 CACACTCGTCGCAGTCGTGAGATATGGCCGCCGCAGTTTCCACCGTCGGTGCAATCAACA 226
|| ||||||||||||| ||||||||||||||||||||||||||||||||||| |||||||
Sbjct 181 CATACTCGTCGCAGTCTTGAGATATGGCCGCCGCAGTTTCCACCGTCGGTGCCATCAACA 240
Query 227 GAGCTCCGTTGAGCTTGAACGGGTCAGGATCAGGAGCTGCATCAGCCCCAGCTTCAACCT 286
||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct 241 GAGCTCCGTTGAGCTTGAACGGGTCAGGATCAGGAGCTGTATCAGCCCCAGCTTCAACCT 300
Query 287 TCTTGGGAAAGAAAGTTGTAACTGTGTCGAGATTCGCACAGAGCAACAAGAAGAGCAACG 346
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 301 TCTTGGGAAAGAAAGTTGTAACTGTGTCGAGATTCGCACAGAGCAACAAGAAGAGCAACG 360
Query 347 GATCATTCAAGGTGTTGGCTGTGAAAGAAGACAAACAAACCGATGGAGACAGATGGA-AG 405
||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 361 GATCATTCAAGGTGTTGGCTGTGAAAGAAGACAAACAAACCGATGGAGACAGATGGAGAG 420
Query 406 GGTCTTGCCTACGACACATCTGATGATCAGCAAGACATCACCAGAGGCAAAGGTATGGTT 465
| ||||||||||||||| ||||||||||| |||||||||||||||||||| |||||||||
Sbjct 421 G-TCTTGCCTACGACACTTCTGATGATCAACAAGACATCACCAGAGGCAAGGGTATGGTT 479
Query 466 GACTCTGTCTTCCAAGCTCCTATGGGAACTGGAACTCACCACGCTGTCCTAAGTTCCTAT 525
||||||||||||||||||||||||||||| |||||||||||||||||||| || || ||
Sbjct 480 GACTCTGTCTTCCAAGCTCCTATGGGAACCGGAACTCACCACGCTGTCCTTAGCTCATAC 539
Query 526 GAATACATTAGCCAAGGCCTTAGGCAGTACAACTTGGACAACATGATGGATGGGTTTTAC 585
|||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 540 GAATACGTTAGCCAAGGCCTTAGGCAGTACAACTTGGACAACATGATGGATGGGTTTTAC 599
Query 586 ATTGCCCCTGCTTTCATGGACAAGCTTGTTGTTCACATCACCAAGAACTTCTTGACTTTG 645
||||| ||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 600 ATTGCTCCTGCTTTCATGGACAAGCTTGTTGTTCACATCACCAAGAACTTCTTGACTCTG 659
Query 646 CCTAACATCAAGGTTCCACTTATTTTGGGTATTTGGGGAGGAAAAGGTCAAGGTAAATCC 705
|||||||||||||||||||||||||||||||| |||||||| ||||||||||||||||||
Sbjct 660 CCTAACATCAAGGTTCCACTTATTTTGGGTATATGGGGAGGCAAAGGTCAAGGTAAATCC 719
Query 706 TTCCAGTGTGAGCTTGTCATGGCCAAGATGGGTATCAACCCAATCATGATGAGCGCTGGA 765
||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct 720 TTCCAGTGTGAGCTTGTCATGGCCAAGATGGGTATCAACCCAATCATGATGAGTGCTGGA 779
Query 766 GAGCTTGAGAGCGGAAACGCAGGAGAACCAGCGAAGCTTATCCGTCAGAGGTACCGTGAG 825
||||||||||| ||||||||||||||||| || |||||||||||||||||||||||||||
Sbjct 780 GAGCTTGAGAGTGGAAACGCAGGAGAACCCGCAAAGCTTATCCGTCAGAGGTACCGTGAG 839
Query 826 GCAGCTGACATGATCAAGAAGGGAAAGATGTGTTGTCTCTTCATCAACGATCTTGACGCT 885
||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 840 GCAGCTGACTTGATCAAGAAGGGAAAGATGTGTTGTCTCTTCATCAACGATCTTGACGCT 899
Query 886 GGTGCTGGTCGTATGGGTGGTACTACTCAGTACACTGTTAACAACCAGATGGTCAACGCA 945
||||| |||||||||||||||||||||||||||||||| |||||||||||||| ||||||
Sbjct 900 GGTGCGGGTCGTATGGGTGGTACTACTCAGTACACTGTCAACAACCAGATGGTTAACGCA 959
Query 946 ACACTCATGAACATTGCTGATAACCCAACCAACGTCCAGCTCCCAGGAATGTACAACAAG 1005
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 960 ACACTCATGAACATTGCTGATAACCCAACCAACGTCCAGCTCCCAGGAATGTACAACAAG 1019
Query 1006 GAAGAGAACGCACGTGTCCCCATCATT-GTCACGGGTAACGATTTCTCCACCCTATACGC 1064
||||||||||||||||||||||||||| | ||| ||||||||||||||||||||||||||
Sbjct 1020 GAAGAGAACGCACGTGTCCCCATCATTTG-CACTGGTAACGATTTCTCCACCCTATACGC 1078
Query 1065 TCCTCTCATCCGTGATGGACGTATGGAGAAGTTCTACTGGGCCCCGACCCGTGAAGACCG 1124
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1079 TCCTCTCATCCGTGATGGACGTATGGAGAAGTTCTACTGGGCCCCGACCCGTGAAGACCG 1138
Query 1125 TATCGGTGTCTGCAAGGGTATCTTCAGAACTGACAATATCAAGGACGAAGACATTGTCAC 1184
|||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct 1139 TATCGGTGTCTGCAAGGGTATCTTCAGAACTGACAAGATCAAGGACGAAGACATTGTCAC 1198
Query 1185 CCTTGTTGATCAGTTCCCTGGTCAATCTATCGATTTCTTCGGTGCCTTGAGGGCGAGAGT 1244
|||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 1199 ACTTGTTGATCAGTTCCCTGGTCAATCTATCGATTTCTTCGGTGCTTTGAGGGCGAGAGT 1258
Query 1245 GTACGATGATGAAGTGAGGAAGTTCGTCGAGGGACTTGGAGTGGAGAAGATCGGAAAGAG 1304
||||||||||||||||||||||||||| ||| | |||||||| |||||||||||||||||
Sbjct 1259 GTACGATGATGAAGTGAGGAAGTTCGTTGAGAGCCTTGGAGTTGAGAAGATCGGAAAGAG 1318
Query 1305 GTTGGTGAACTCAAGGGAAGGACCTCCCGTGTTTGAGCAACCCGAGATGACTCT-TGAGA 1363
| |||| |||||||||||||||||||||||||| |||||||||||||||||| | |||||
Sbjct 1319 GCTGGTTAACTCAAGGGAAGGACCTCCCGTGTTCGAGCAACCCGAGATGACT-TATGAGA 1377
Query 1364 AGCTTATGGAGTACGGAAACATGCTCGTGATGGAACAAGAGAATGTCAAGAGAGTCCAAC 1423
|||||||||| |||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct 1378 AGCTTATGGAATACGGAAACATGCTTGTGATGGAACAAGAGAATGTCAAGAGAGTCCAAC 1437
Query 1424 TTGCCGACACTTACCTCAGCCAGGCTGCGTTGGGAGACGCAAACGCTGACGCCATCGACC 1483
||||||| || ||||||||||||||||| |||||||||||||||||||||||||||| ||
Sbjct 1438 TTGCCGAGACCTACCTCAGCCAGGCTGCTTTGGGAGACGCAAACGCTGACGCCATCGGCC 1497
Query 1484 GCGGAACTTTCTACGGAAAAGGTGCCCAGCAAGTAAGCCTGCCTGTTCCTGAAGGGTGTA 1543
|||||||||||||||||||||| ||||||||||||| |||||| ||||||||||||||||
Sbjct 1498 GCGGAACTTTCTACGGAAAAGGAGCCCAGCAAGTAAACCTGCCAGTTCCTGAAGGGTGTA 1557
Query 1544 CTGATCCTGTGGCTGAAAACTTTGATCCAACCGCTAGAAGTGACGATGGAACCTGTGTCT 1603
||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct 1558 CTGATCCTGTGGCTGAAAACTTTGATCCAACGGCTAGAAGTGACGATGGAACCTGTGTCT 1617
Query 1604 ACAACTTTTGAGCAATATTATCCTGCTTATTAATTTGCTGTTTTACTCCTATTGTCTCTT 1663
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1618 ACAACTTTTGAGCAATATTATCCTGCTTATTAATTTGCTGTTTTACTCCTATTGTCTCTT 1677
Query 1664 TTGGTT-ATTTTTTCCCCTTTTGTGTAACTGTGGATTGGGTCTTGTCCTCTTTTGTTCC- 1721
|||||| |||||| | ||||| |||||| |||||||||| |||||||||||||||||||
Sbjct 1678 TTGGTTTATTTTT-CTCCTTT-GTGTAATTGTGGATTGGATCTTGTCCTCTTTTGTTCCC 1735
Query 1722 ttttttttttATGATCATGTGCAACACATTGGTAATTTAAAATTGCCTTGTCATAAACTA 1781
|||||||||| | || |||| |||||||||||||||||||||||||||||||||||||||
Sbjct 1736 TTTTTTTTTTTTTATGATGTACAACACATTGGTAATTTAAAATTGCCTTGTCATAAACTA 1795
Query 1782 CATTTCTT 1789
|| |||||
Sbjct 1796 CACTTCTT 1803
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 88503560835
Database: TAIR10_cdna_20110103_representative_gene_model_updated
Posted date: Sep 25, 2014 6:13 PM
Number of letters in database: 51,074,197
Number of sequences in database: 33,602
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5